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Restrict sequence dictionary paths #3696

Merged
merged 5 commits into from
Jul 8, 2022
Merged

Restrict sequence dictionary paths #3696

merged 5 commits into from
Jul 8, 2022

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adamnovak
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Changelog Entry

To be copied to the draft changelog by merger:

  • BAM alignment output now tries to use reference paths, and then generic paths, but won't use haplotype paths by default

Description

This ought to fix #3694.

I think it probably needs a test, though.

@adamnovak adamnovak merged commit d03d0f1 into master Jul 8, 2022
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giraffe with -o bam is slow
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